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lncRNA: ENSG00000267892

Summary for CTD-2540F13.2

Gene summary

Gene information	Ensembl ID	ENSG00000267892
	Gene symbol	CTD-2540F13.2
	Gene name
	HGNC
	Entrez ID
	Gene type	antisense
	Synonyms
	UniProtAcc

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Structure and expression level for CTD-2540F13.2

Differentially expressed gene analysis between cancer and normal samples.

Ensembl ID	Base mean	log2FC(AD/control)	lfcSE	Stat	P-value	Adjc.p-value	DEG direction	Cancer type
ENSG00000267892	1.748592e+02	1.312070e+00	4.091739e-01	3.206631e+00	1.342989e-03	4.505819e-03	UP	CHOL
ENSG00000267892	4.851133e+02	2.375269e+00	1.462648e-01	1.623951e+01	2.650000e-59	9.010000e-58	UP	KIRC
ENSG00000267892	2.778216e+02	1.260306e+00	2.275999e-01	5.537376e+00	3.070000e-08	1.710000e-07	UP	KIRP
ENSG00000267892	1.129056e+02	1.621878e+00	3.319034e-01	4.886597e+00	1.030000e-06	2.930000e-05	UP	ESCA
ENSG00000267892	1.008789e+02	1.866314e+00	1.817484e-01	1.026867e+01	9.750000e-25	8.090000e-24	UP	LUSC
ENSG00000267892	8.898482e+01	1.580283e+00	1.740512e-01	9.079410e+00	1.090000e-19	1.080000e-18	UP	LUAD

Correlation between lncRNAs and cancer stages.

LncRNA Ensembl ID	Correlation	P-value	Cancer Type	Adjc.p-value
ENSG00000267892	3.258372e-01	2.894240e-02	CHOL	3.046378e-02

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lncRNA-Protein interaction for CTD-2540F13.2

lncRNA-epigenetic factor interaction (#cancer types with positive correlation >= 5).

LncRNA Ensembl ID

LncRNA ENST ID

LncRNA Name

Protein Ensembl ID

Protein Name

CatRAPID Score

Lncpro Score

UniPortID

Gene Subtype

Public source

lncRNA-transcript factor interaction (#cancer types with positive correlation >= 5).

LncRNA Ensembl ID

LncRNA ENST ID

LncRNA Name

Protein Ensembl ID

Protein Name

CatRAPID Score

Lncpro Score

UniPortID

Gene Subtype

Public source

lncRNA-RNA binding protein interaction (#cancer types with positive correlation >= 5).

LncRNA Ensembl ID

LncRNA ENST ID

LncRNA Name

Protein Ensembl ID

Protein Name

CatRAPID Score

Lncpro Score

UniPortID

Gene Subtype

Public source

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lncRNA-DNA interaction for CTD-2540F13.2

lncRNA targets the enhancer region and positively regulates the gene expression.

Only predicted by TDF

ATAT1,GLI4,RBM39,CAPN12,DPY19L3,TMEM234,SAMD4B,SH2B1,NFKBIB,FAM98C,MZF1,CHTF18,TMEM44,PLEKHG2,C1orf35,RINL,ATAD3B,MUTYH,MRPS12,DCAF8,MFSD10,SERTAD3,CCNL2,CAPN10,VMP1,LIN37,CENATAC,NPEPL1,SNRPA,SAFB2,KCTD13,MSANTD2,THOC1,PHKG2,SARS2,CHTOP,CENPT,PAF1,SPG7,KAT2A,RCCD1,TAF1C,CLK2,POLG2,DHX34,AAAS,CEP89,METTL17,SETD6,WDR83,DYRK1B,OFD1,MOV10,HAUS5,IFT172,FBXO17,CFAP298,CEP290,HSF4,PROSER3,INO80E,THOC6,ANKS3,YJEFN3,C19orf54,CCHCR1,TRADD,USP21,TIGD1,TRIM52,NOL12,CLASRP,SRSF2,STK36,TSEN54,SIPA1L3,SUPT5H,ATG4B,TMUB2,CCDC191,MED29,C2orf68,FBXL8,YIF1B,SETD4,FAM193B,RNF215,AARSD1,PNKP,NAT9,CCDC142,YPEL3,ARHGAP33,UCKL1,CCDC24,UBXN11,EIF3K,KHDC4,CYTH2,ECH1,CCDC57,TEPSIN,RBM33

Exist in public source

lncRNA targets the promoter region and positively regulates the gene expression.

lncRNA targets the promoter region and negatively regulates the gene expression.

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lncRNA-RNA interaction for CTD-2540F13.2

lncRNA targets the 3'UTR region and negatively regulates the mRNA.

lncRNA targets the skipped exon region.

-lncRNA and exonskipping events are positively correlated.

LncRNA Ensembl ID

LncRNA ENST ID

Exon ID

Skipped Exon

ndG

Gene name with skipped exon

TransID with skipped exon

ORF mutation

-lncRNA and exonskipping events are negatively correlated.

LncRNA Ensembl ID

LncRNA ENST ID

Exon ID

Skipped Exon

ndG

Gene name with skipped exon

TransID with skipped exon

LOF

lncRNA targets by miRNA.

LncRNA Ensembl ID

miRNA ID

LncRNA ENST ID

Binding site in lncRNA

Score

Energy

Align Len

Public source

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Variants for CTD-2540F13.2

RNA A-to-I editing events in lncRNA.

LncRNAediting ID

LncRNA Ensembl ID

Chromosome

Editing Position

Strand

Gene Type

Gene Name

Transcript ID

Transcript Type

Transcript Name

Edited-associated DElncRNAs in cancer.

LncRNA Ensembl ID

LncRNA Index

Cancer Type

Chr_Postion_Strand

AVE1

AVE2

log2FC

W-value

P-value

Adjc.p-value

Change

Correlation between RNA A-to-I editing events's frequecy and lncRNA expression.

LncRNA Ensembl ID

LncRNA Index

Correlation

P-value

Adjc.p-value

Cis-expression quantitative trait loci(cis-eQTL) of lncRNA.

LncRNA Ensembl ID

LncRNA Name

SNP info

Number of Positive corelated Cancer

Positive corelated Cancer

Number of Negative corelated Cancer

Negative corelated Cancer

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lncRNAs regulate the target genes through functioning as enhancers

lncRNA regulates differentially expressed genes by function as enhancer.

LncRNA Ensembl ID	PC Gene ID	PC Gene Name	Positive correlated cancers	Cancer with PC gene up-regulation	Cancer with PC gene down-regulation
ENSG00000267892	ENSG00000104835	SARS2	CESC,CHOL,ESCA,KIRC,KIRP,LIHC,LUAD,LUSC,OV,PAAD,UCS	LUSC
ENSG00000267892	ENSG00000105738	SIPA1L3	CESC,CHOL,LIHC,LUAD,LUSC,OV,UCS	CHOL
ENSG00000267892	ENSG00000128626	MRPS12	CESC,CHOL,ESCA,LUSC,OV,UCS	LUSC
ENSG00000267892	ENSG00000004777	ARHGAP33	CHOL,KIRC,KIRP,LIHC,LUSC,OV	CHOL,KIRC,LUSC
ENSG00000267892	ENSG00000062716	VMP1	CHOL,KIRC,KIRP,LIHC,PAAD	KIRC,KIRP
ENSG00000267892	ENSG00000090924	PLEKHG2	CHOL,KIRC,LIHC,LUSC,OV,UCS	CHOL,KIRC
ENSG00000267892	ENSG00000102871	TRADD	CHOL,KIRC,KIRP,LIHC,PAAD	KIRC,KIRP
ENSG00000267892	ENSG00000104859	CLASRP	CHOL,ESCA,KIRC,KIRP,LIHC,LUAD,LUSC	KIRC
ENSG00000267892	ENSG00000105443	CYTH2	CHOL,ESCA,KIRC,KIRP,LIHC,PAAD	CHOL
ENSG00000267892	ENSG00000109065	NAT9	CHOL,ESCA,KIRC,KIRP,LIHC,LUAD,LUSC	LUAD
ENSG00000267892	ENSG00000109736	MFSD10	CHOL,KIRC,KIRP,LIHC,PAAD	CHOL,KIRP
ENSG00000267892	ENSG00000121289	CEP89	CHOL,KIRC,KIRP,LIHC,LUSC,OV	CHOL
ENSG00000267892	ENSG00000127586	CHTF18	CHOL,KIRC,KIRP,LIHC,LUSC	CHOL,KIRC,KIRP,LUSC
ENSG00000267892	ENSG00000135637	CCDC142	CHOL,ESCA,KIRC,KIRP,LUSC	KIRC
ENSG00000267892	ENSG00000135722	FBXL8	CHOL,KIRC,KIRP,LUSC,PAAD	KIRC,KIRP
ENSG00000267892	ENSG00000137343	ATAT1	CHOL,ESCA,KIRC,KIRP,LIHC,PAAD	CHOL
ENSG00000267892	ENSG00000138002	IFT172	CHOL,KIRC,KIRP,LIHC,PAAD	CHOL
ENSG00000267892	ENSG00000142330	CAPN10	CHOL,ESCA,KIRC,KIRP,LUSC	CHOL
ENSG00000267892	ENSG00000143258	USP21	CHOL,KIRC,KIRP,LIHC,LUSC	CHOL
ENSG00000267892	ENSG00000143793	C1orf35	CHOL,KIRC,KIRP,LUSC,PAAD	LUSC
ENSG00000267892	ENSG00000145014	TMEM44	CHOL,KIRC,KIRP,LIHC,PAAD	CHOL,KIRC,KIRP
ENSG00000267892	ENSG00000158062	UBXN11	CHOL,ESCA,KIRC,KIRP,PAAD	CHOL,KIRC,KIRP
ENSG00000267892	ENSG00000163482	STK36	CHOL,ESCA,KIRC,KIRP,PAAD	CHOL
ENSG00000267892	ENSG00000167595	PROSER3	CHOL,KIRC,LUSC,OV,UCS	CHOL
ENSG00000267892	ENSG00000168096	ANKS3	CHOL,ESCA,KIRC,KIRP,LIHC,LUAD,LUSC,PAAD	CHOL,KIRP
ENSG00000267892	ENSG00000169592	INO80E	CHOL,ESCA,KIRC,KIRP,PAAD	KIRC
ENSG00000267892	ENSG00000174943	KCTD13	CHOL,ESCA,KIRC,KIRP,LIHC	CHOL,KIRC,KIRP
ENSG00000267892	ENSG00000182173	TSEN54	CHOL,ESCA,KIRC,KIRP,LIHC,LUAD	CHOL
ENSG00000267892	ENSG00000182472	CAPN12	CHOL,ESCA,KIRC,KIRP,LIHC,LUAD,LUSC,OV,PAAD	ESCA,KIRC,KIRP,LUAD,LUSC
ENSG00000267892	ENSG00000185917	SETD4	CHOL,KIRC,KIRP,LIHC,PAAD	CHOL
ENSG00000267892	ENSG00000198707	CEP290	CHOL,KIRC,KIRP,LUSC,UCS	CHOL
ENSG00000267892	ENSG00000215440	NPEPL1	CHOL,KIRC,KIRP,LIHC,LUSC,PAAD	CHOL,KIRC
ENSG00000267892	ENSG00000249115	HAUS5	CHOL,KIRC,LIHC,LUSC,OV	LUSC
ENSG00000267892	ENSG00000250067	YJEFN3	CHOL,ESCA,KIRC,KIRP,LUSC,PAAD	CHOL,KIRC,KIRP,LUSC
ENSG00000267892	ENSG00000256525	POLG2	CHOL,KIRC,KIRP,LIHC,LUAD,LUSC,PAAD	KIRC,KIRP,LUAD
ENSG00000267892	ENSG00000267796	LIN37	CHOL,KIRC,KIRP,LIHC,LUAD,LUSC,OV	KIRC
ENSG00000267892	ENSG00000269190	FBXO17	CHOL,KIRC,LUSC,OV,UCS	KIRC,LUSC
ENSG00000267892	ENSG00000132680	KHDC4	ESCA,KIRC,KIRP,LIHC,LUSC,PAAD	LUSC
ENSG00000267892	ENSG00000160072	ATAD3B	ESCA,KIRC,KIRP,LUSC,PAAD	KIRC,LUSC
ENSG00000267892	ENSG00000186166	CENATAC	ESCA,KIRC,KIRP,LIHC,PAAD	KIRC,KIRP
ENSG00000267892	ENSG00000108773	KAT2A	KIRC,KIRP,LIHC,LUAD,LUSC,PAAD	KIRC,KIRP,LUAD,LUSC
ENSG00000267892	ENSG00000166965	RCCD1	KIRC,KIRP,LIHC,LUSC,PAAD	LUSC
ENSG00000267892	ENSG00000221978	CCNL2	KIRC,KIRP,LUAD,LUSC,PAAD	KIRC,KIRP,LUAD
ENSG00000267892	ENSG00000273899	NOL12	KIRC,KIRP,LIHC,LUSC,PAAD,UCS	KIRC,LUSC

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lncRNAs regulate the target genes through recruiting transcript factors

LncRNA-TF complex positively regulates the gene expression by target promoter region (#cancer types with positive correlation >= 5).

lncRNA ID

TF ID

TF Name

PCgene ID

PCgene Name

Number of Cancer

Canaer Types

LncRNA-TF complex negatively regulates the gene expression by target promoter region (#cancer types with negative correlation >= 5).

lncRNA ID

TF ID

TF Name

PCgene ID

PCgene Name

Number of Cancer

Canaer Types

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lncRNAs regulate the alternative splicing event through interacting with splicing factor

LncRNA-RBP complex positively regulates the exon skippping events by target skipped eoxon region.

LncRNA Ensembl ID

RBP ID

RBP Gene Name

Exon Skipping ID

Skipped Exon

EX Gene Name

EX Affected TransID

ORF_anno

Cancer Type

LncRNA-RBP complex negatively regulates the exon skippping events by target skipped eoxon region.

LncRNA Ensembl ID

RBP ID

RBP Gene Name

Exon Skipping ID

Skipped Exon

EX Gene Name

EX Affected TransID

ORF_anno

Cancer Type

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lncRNAs regulate mRNA through targeting the 3'-UTR region

lncRNA regulates differential expressed mRNA by directly targeting 3' UTR region.

LncRNA Ensembl ID

LncRNA ENST ID

PC Gene Name

PC Gene ID

PC ENST ID

nDG

Cancer with PC gene up-regulation

Cancer with PC gene Down-regulation

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lncRNAs regulate mRNA by competing with miRNA

lncRNA regulates mRNA by competing the miRNA binding site with mRNA.

LncRNA Ensembl ID

lncRNA-miRNA-mRNA

Cancer Types

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lncRNA coding potential

ORFfinder result for the gencode.v22.lncRNA.transcript.fa.

lncRNA Ensembl ID	lncRNA ENST ID	length(AA)	start at transcript	end at transcript
ENSG00000267892.1	ENST00000602255.1	37	41	154

	lncRNA summary
	lncRNA structure and expression level
	lncRNA-Protein interaction
	lncRNA-DNA interaction
	lncRNA-RNA interaction
	Variants in lncRNA
	lncRNAs regulate the target genes through functioning as enhancers
	lncRNAs regulate the target genes through recruiting transcript factors
	lncRNAs regulate the alternative splicing events through interacting with splicing factor
	lncRNAs regulate mRNA through targeting the 3'-UTR region
	lncRNAs regulate mRNA by competing with miRNA
	lncRNA coding potential